Table 2 Nine SNPs selected for functional evaluation
SNP | SNP 27:18,861,228 | SNP 27:19,086,778 | SNP 27:19,093,355 | SNP 27:19,096,199 | SNP 27:19,112,169 | SNP 27:19,114,170 | SNP 27:19,124,996 | SNP 27:19,135,677 | SNP 27:19,140,837 | Haplotype ID | GSD cases (%) a | GSD controls (%) a | p-valueb | OR |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Control alleles | C | C | C | T | A | C | T | G | T | 5 | 84.6 | 97.6 | 0.0032 | 0.14 (95 CI: 0.03–0.6) |
Risk alleles | A | T | T | G | G | G | A | A | G | 20 | 35.2 | 9.6 | 5.9×10−5 | 5.1 (95 CI: 2.2–11.9) |
Association p-value in GSD | 1.3×10−5 | 2.7×10−6 | 7.1×10−5 | 2.8×10−5 | 1.9×10−5 | 1.9×10−5 | 3.8×10−6 | 1.0×10−5 | 2.7×10−6 | |||||
Rank in association analyses: | ||||||||||||||
GWAS | 2 | na | na | na | na | na | na | na | 1 | |||||
GSD fine-map | 16 | 1 | 37 | 26 | 21 | 20 | 3 | 12 | 1 | |||||
GSD + LRCAD breeds | 64 | 1 | 9 | 4 | 2 | 3 | 14 | 1 | 15 |